干旱区生态环境知识资源中心(Arid): Assessing thermal adaptation using family-based association and F-ST outlier tests in a threatened trout species

Arid

DOI	10.1111/mec.15100
	Assessing thermal adaptation using family-based association and F-ST outlier tests in a threatened trout species
	Amish, Stephen J.1,2; Ali, Omar 3; Peacock, Mary 4; Miller, Michael 3; Robinson, Morgan 5; Smith, Seth 2; Luikart, Gordon 1,2; Neville, Helen 6
通讯作者	Neville, Helen
来源期刊	MOLECULAR ECOLOGY
ISSN	0962-1083
EISSN	1365-294X
出版年	2019
卷号	28 期号:10 页码:2573-2593
英文摘要	Discovering genetic markers associated with phenotypic or ecological characteristics can improve our understanding of adaptation and guide conservation of key evolutionary traits. The Lahontan cutthroat trout (Oncorhynchus clarkii henshawi) of the northern Great Basin Desert, USA, demonstrated exceptional tolerance to high temperatures in the desert lakes where it resided historically. This trait is central to a conservation hatchery effort to protect the genetic legacy of the nearly extinct lake ecotype. We genotyped full-sibling families from this conservation broodstock and samples from the only two remaining, thermally distinct, native lake populations at 4,644 new single nucleotide polymorphisms (SNPs). Family-based genome-wide association testing of the broodstock identified nine and 26 SNPs associated with thermal tolerance (p p < 0.1), measured in a previous thermal challenge experiment. Genes near the associated SNPs had complex functions related to immunity, growth, metabolism and ion homeostasis. Principal component analysis using the thermotolerance-related SNPs showed unexpected divergence between the conservation broodstock and the native lake populations at these loci. F-ST outlier tests on the native lake populations identified 18 loci shared between two or more of the tests, with two SNPs identified by all three tests (p < 0.01); none overlapped with loci identified by association testing in the broodstock. A recent history of isolation and the complex genetic and demographic backgrounds of Lahontan cutthroat trout probably limited our ability to find shared thermal tolerance loci. Our study extends the still relatively rare application of genomic tools testing for markers associated with important phenotypic or environmental characteristics in species of conservation concern.
英文关键词	body condition conservation hatchery adaptation full-sibling families genome-wide association studies Lahontan cutthroat trout lake life history thermal tolerance
类型	Article
语种	英语
国家	USA
开放获取类型	Green Published, Bronze
收录类别	SCI-E
WOS记录号	WOS:000472237600011
WOS关键词	LAHONTAN CUTTHROAT TROUT ; SALMON ONCORHYNCHUS-TSHAWYTSCHA ; CLIMATE-CHANGE IMPACTS ; LOCAL ADAPTATION ; SOCKEYE-SALMON ; PACIFIC SALMON ; TEMPERATURE TOLERANCE ; CHINOOK SALMON ; REDBAND TROUT ; POPULATION GENOMICS
WOS类目	Biochemistry & Molecular Biology ; Ecology ; Evolutionary Biology
WOS研究方向	Biochemistry & Molecular Biology ; Environmental Sciences & Ecology ; Evolutionary Biology
来源机构	University of California, Davis
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/217650
作者单位	1.Univ Montana, Div Biol Sci, Conservat Genom Grp, Missoula, MT 59812 USA; 2.Univ Montana, Flathead Biol Stn, Polson, MT USA; 3.Univ Calif Davis, Dept Anim Sci, Davis, CA 95616 USA; 4.Univ Nevada, Dept Biol, Reno, NV 89557 USA; 5.NOAA Fisheries, Lacey, WA USA; 6.Trout Unltd, Sci Program, Boise, ID 83702 USA
推荐引用方式 GB/T 7714	Amish, Stephen J.,Ali, Omar,Peacock, Mary,et al. Assessing thermal adaptation using family-based association and F-ST outlier tests in a threatened trout species[J]. University of California, Davis,2019,28(10):2573-2593.
APA	Amish, Stephen J..,Ali, Omar.,Peacock, Mary.,Miller, Michael.,Robinson, Morgan.,...&Neville, Helen.(2019).Assessing thermal adaptation using family-based association and F-ST outlier tests in a threatened trout species.MOLECULAR ECOLOGY,28(10),2573-2593.
MLA	Amish, Stephen J.,et al."Assessing thermal adaptation using family-based association and F-ST outlier tests in a threatened trout species".MOLECULAR ECOLOGY 28.10(2019):2573-2593.